MOAT output

Q:
I have a problem with the analysis and I’m not sure if I am using you software properly. I am trying to calculate the mutation burden of some of my samples (similar to the measurements performed here: https://genomemedicine.biomedcentral.com/articles/10.1186/s13073-017-0424-2#Sec2). I ended up trying to using MOAT from the second comment of this post in Biostars (https://www.biostars.org/p/299549/). However I cannot obtain the percentage as (nr.mutations/Mb). I am using MOAT-a using the argument “—wg_signal_mode=n”, I am doing something wrong?

A:
MOAT-a wasn’t meant to be used that way. The simulated variants in MOAT-a are internal data used to calculate p-value significance for elevated mutation burden on the input annotations. You can use MOAT-s to create a simulated variant set, and then calculate (number_of_mutations)/Mb from that.

Leave a Reply

Fill in your details below or click an icon to log in:

WordPress.com Logo

You are commenting using your WordPress.com account. Log Out /  Change )

Google photo

You are commenting using your Google account. Log Out /  Change )

Twitter picture

You are commenting using your Twitter account. Log Out /  Change )

Facebook photo

You are commenting using your Facebook account. Log Out /  Change )

Connecting to %s